RetrogeneDB ID:

retro_ogar_2982

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873693.1:261537..263170(+)
Located in intron of:ENSOGAG00000016304
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:XPO1
Ensembl ID:ENSOGAG00000000143
Aliases:None
Description:exportin 1 (CRM1 homolog, yeast) [Source:HGNC Symbol;Acc:12825]


Retrocopy-Parental alignment summary:






>retro_ogar_2982
TTTGAAGTTCCTCCCAGGAGACAGCTGTATTTACCCATATTATCCAAGATCCACTTATTGATGGTTAGTCAAATGGCTAA
CCCAGAATAAGTACTGGTTGTAGAAAATGATCAAGGAGAGGTTATGAGAGAATTCATGAAGGACACAGATTCCCTAAATT
TGTATAAGAATATGCAAGAAACATTAGTTTATCTTACTCATCTGGATTATGTAGATACAGAAAGAATAATGACTGAGAAA
CTTCACAATGAAGGGAATGGTACAGAATGGTCATGGAAATATTTGAATACCTTGTGTTGGGCCATAGGTTCCATTAGTTG
AGTAATGCGTGAAGAGGATGAAAAATGATTTCTTGTTATTATTATAAAGGATCTTTTAGGATTATGTGAACACAAAAGAG
GCAAAGATAATAAAGCTATTTTTGCATCTGATGCCATGTACATAGTAGGCCAATATCCCAGGTTTTTGCGACCTCATTGG
AAATTTTTGAACACTGTAGTCAACAAGCTATTTGAGTTCATGCATGAGACCCATGATGGAGTTCAGGACATGGCTTGTGA
TACTTTCATTAAAATAGCTCAAAAATGCCACAGGCATTTTGTTCAGGTTCAAGTTGGAGAGGTAATGCCATTTATTGATG
AGCTTTTGAACAACATTAACAGTATAATTTGTGATCTTCAGCCTCAATAGGTTCATACATTTTATGAAGCTGTGGGATAC
ATGGTTGGTGCACAGACAGATCAAACTGTACAGGACATGTGATTGAAAAATACATGCTACTCCCAGATGAAGTGTGGGAT
AGTGTCATCCAGCAGGCAACCCAAAACATGGATATACTGAAAGATCCTGAAACAGTCAAGCAGCTTGGTAGCATATTGAA
AACGAATGTGAGAGCCTGCAAAGCCGTTGGACATCCCTTTGTAATTCAGCTTGGAAGAATTTATTTAGATATGCTTAATA
TCTACAAGTGCCTCAGTGAAGATATTTCTGCAGCTATTCAAGCTAATGGTGAGATGGTTACAAAGCACCATTGATTAGAA
ATATGTGAACAGTAAAAAGGGAAACTGTAAAGTTAATATATGGTTGGGTGAGCTGGTGCAATGATCCACAGATGGTAGGT
GAAATTTTTGTTCCTCCTCTGTTGGATGCAGTTCTCATTGATTATCAGAGAAATGTCCCAGCTGCTAGAGAACCAGAAGT
GCTTAGTACTATGGCCATTATTGTCAACAAGTAAGGAGGACATATAACAGCTGAAATACCTCAAATATTGGATGCTGGTT
TTGAATGCACATTGAACATGATAAATAAGGACTTTCAAGAATATCCTAAACACAGAACAAACTTTTTCTTACTACTTCAG
GATGTAAATTCTCACAGTTTCCCAGCATTCCTAGCAATTCCACTTGCACAGTTTAAACTTGTTTGGATTCCATTATTTGG
GCTTTCAAACATACTATGAGGAATGTTACTGATATAAGCTTACAAATTCTTTTTACACTCCTACAAAATGTTGCTAAGAA
GAAGCTGTAGCTCAGAGTTTTATCAAACTTAGTTTTGTGACATTCTTCAGTATATCTTTTCTGTTGTGACAGACACATCA
CATACTGCTGGCTTAACAATGCATGCATCAATT

ORF - retro_ogar_2982 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.56 %
Parental protein coverage: 52.39 %
Number of stop codons detected: 7
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalFEVPPRRQLYLPVLSKVRLLMVSRMAKPEEVLVVENDQGEVVREFMKDTDSINLYKNMRETLVYLTHLDY
FEVPPRRQLYLP.LSK..LLMVS.MA.PE.VLVVENDQGEV.REFMKDTDS.NLYKNM.ETLVYLTHLDY
RetrocopyFEVPPRRQLYLPILSKIHLLMVSQMANPE*VLVVENDQGEVMREFMKDTDSLNLYKNMQETLVYLTHLDY
ParentalVDTERIMTEKLHNQVNGTEWSWKNLNTLCWAIGSISGAMHEEDEKRFLVTVIKDLLGLCEQKRGKDNKAI
VDTERIMTEKLHN..NGTEWSWK.LNTLCWAIGSIS..M.EEDEK.FLV..IKDLLGLCE.KRGKDNKAI
RetrocopyVDTERIMTEKLHNEGNGTEWSWKYLNTLCWAIGSIS*VMREEDEK*FLVIIIKDLLGLCEHKRGKDNKAI
ParentalIASNIMYIVGQYPRFLRAHWKFLKTVVNKLFEFMHETHDGVQDMACDTFIKIAQKCRRHFVQVQVGEVMP
.AS..MYIVGQYPRFLR.HWKFL.TVVNKLFEFMHETHDGVQDMACDTFIKIAQKC.RHFVQVQVGEVMP
RetrocopyFASDAMYIVGQYPRFLRPHWKFLNTVVNKLFEFMHETHDGVQDMACDTFIKIAQKCHRHFVQVQVGEVMP
ParentalFIDEILNNINTIICDLQPQQVHTFYEAVGYMIGAQTDQTVQE-HLIEKYMLLPNQVWDSIIQQATKNVDI
FIDE.LNNIN.IICDLQPQ.VHTFYEAVGYM.GAQTDQTVQ..H.IEKYMLLP..VWDS.IQQAT.N.DI
RetrocopyFIDELLNNINSIICDLQPQ*VHTFYEAVGYMVGAQTDQTVQD<HVIEKYMLLPDEVWDSVIQQATQNMDI
ParentalLKDPETVKQLGSILKTNVRACKAVGHPFVIQLGRIYLDMLNVFLWYRKIVENIWELLQALSEMVTKQ-PL
LKDPETVKQLGSILKTNVRACKAVGHPFVIQLGRIYLDMLN....Y....E.I....QA..EMVTK..PL
RetrocopyLKDPETVKQLGSILKTNVRACKAVGHPFVIQLGRIYLDMLNI---YKCLSEDISAAIQANGEMVTKH<PL
ParentalIRSMRTVKRETLKLISGWVSRSNDPQMVAENFVPPLLDAVLIDYQRNVPAAREPEVLSTMAIIVNKLGGH
IR.M.TVKRET.KLI.GWVS..NDPQMV.E.FVPPLLDAVLIDYQRNVPAAREPEVLSTMAIIVNK.GGH
RetrocopyIRNM*TVKRETVKLIYGWVSWCNDPQMVGEIFVPPLLDAVLIDYQRNVPAAREPEVLSTMAIIVNK*GGH
ParentalITAEIPQIFDAVFECTLNMINKDFEEYPEHRTNFFLLLQAVNSHCFPAFLAIPPAQFKLV-LDSIIWAFK
ITAEIPQI.DA.FECTLNMINKDF.EYP.HRTNFFLLLQ.VNSH.FPAFLAIP.AQFKLV.LDSIIWAFK
RetrocopyITAEIPQILDAGFECTLNMINKDFQEYPKHRTNFFLLLQDVNSHSFPAFLAIPLAQFKLV<LDSIIWAFK
ParentalHTMRNVADTGLQILFTLLQNVAQ-EEAAAQS-FYQTYFCDILQHIFSVVTDTSHTAGLTMHASI
HTMRNV.D..LQILFTLLQNVA..EEA.AQS.FYQT.FCDILQ.IFSVVTDTSHTAGLTMHASI
RetrocopyHTMRNVTDISLQILFTLLQNVAK<EEAVAQS<FYQT*FCDILQYIFSVVTDTSHTAGLTMHASI

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_2982 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.
Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Monodelphis domestica ENSMODG000000028311 retrocopy
retro_mdom_1971,
Otolemur garnettii ENSOGAG00000000143 1 retrocopy
retro_ogar_2982 ,


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